[R] plot.hclust point to older version

[William Dunlap]

How disruptive would it be if R were changed so the startup line
   [Previously saved workspace restored]
were changed to show the complete name, from normalizePath(), of the
saved workspace file?  E.g.,
   [Previously saved workspace restored from 'C:\Program Files\R\.RData']

(It is bad enough that the file name starts with a dot so it is hidden from
'ls',
but on Windows lots of people don't know what directory R is starting in.
On
my Windows PC R-3.1.2 starts in C:/Program Files/R, the parent of its RHOME
directory.)


Bill Dunlap
TIBCO Software
wdunlap tibco.com

On Wed, Nov 26, 2014 at 1:02 AM, Martin Maechler <maechler at stat.math.ethz.ch
> wrote:

>
> > Thanks! That worked
>
> Of course: As in about 99.99% of all cases where Bill Dunlap  helps.
>
>
> > You probably have a local copy of an old version of plot.hclust or
> plot.dendrogram in your global environmenet or another package that masks
> the one in package:stats.  E.g., I fired up R-2.14.2 and copied those 2
> plot methods to .GlobalEnv and then saved by workspace when quitting R.  I
> then fired up R-3.1.1, which loads the workspace saved by the older version
> of R.  I get:
>
> > > objects()
> > [1] "plot.dendrogram" "plot.hclust"
> > > plot(hclust(dist(c(2,3,5,7,11,13,17,19))))
> > Error in .Internal(dend.window(n, merge, height, hang, labels, ...)) :
> >   there is no .Internal function 'dend.window'
> > > traceback()
> > 2: plot.hclust(hclust(dist(c(2, 3, 5, 7, 11, 13, 17, 19))))
> > 1: plot(hclust(dist(c(2, 3, 5, 7, 11, 13, 17, 19))))
>
> > Note how calling traceback() after an error gives more information about
> the source of the error.
>
> > To fix this, get rid of the .RData file that is being loaded when R
> starts.
>
> In the spirit of the old -- now politically incorrect -- sayings
>  `` Real men don't ..... '''
> I'd like to emphasize my own view that
>  "Real useRs don't use .RData"
>
> in other words, experienced R users do not let their workspace
> be saved automatically (to '.RData') and hence do not load any
> .RData automatically at startup.
>
> Consequently, use R with the '--no-save' command line argument
> (maybe also with '--no-restore').
>
> ESS (Emacs Speaks Statistics) users can put
>
> (custom-set-variables
>  '(inferior-R-args "--no-restore-history --no-save ")
> )
>
> into their ~/.emacs
> {and I'd like to see a way to do this easily with RStudio...}
>
> Martin Maechler,
> ETH Zurich and R Core Team
>
> > Bill Dunlap
> > TIBCO Software
> > wdunlap tibco.com<http://tibco.com>
>
> > On Tue, Nov 25, 2014 at 12:18 PM, Rolf Turner <r.turner at auckland.ac.nz
> <mailto:r.turner at auckland.ac.nz>> wrote:
> > On 26/11/14 08:53, Michael Mason wrote:
> > Here you are. I expect most folks won't get the error.
>
> > N   = 100; M = 1000
> > mat = matrix(1:(N*M) + rnorm(N*M,0,.5),N,M)
> > h   = hclust(as.dist(1-cor(mat)))
> > plot(h)
>
> > Error in .Internal(dend.window(n, merge, height2, hang, labels, ...)) :
> >    there is no .Internal function 'dend.window'
>
>
>
> > Thanks again
>
>
> > On 11/25/14 11:29 AM, "Rolf Turner" <r.turner at auckland.ac.nz<mailto:
> r.turner at auckland.ac.nz>> wrote:
>
>
>
> > Reproducible example???
>
> > (I know from noddink about hclust, but I tried the example from the help
> > page and it plotted without any problem.)
>
> > cheers,
>
> > Rolf Turner
>
> > On 26/11/14 06:13, Michael Mason wrote:
> > Hello fellow R users,
>
> > I have recently updated to R 3.1.2. When trying to plot an hclust
> > object to generate the dendrogram I get the following error:
>
> > Error in .Internal(dend.window(n, merge, height2, hang, labels, ...)) :
> >     there is no .Internal function 'dend.window'
>
>
> > I am indeed using R3.1.2 but my understanding is that the .Internal API
> > to the C code is no longer used. I have tried detaching the stats
> > package and restarting R to no avail.
> > I would love any help from any wiser guRus.
>
> > Please keep communications on-list; there are others on the list far
> more likely to be able to help you than I.  I am cc-ing this reply to the
> list.
>
> > For what it's worth, I can run your example without error.
>
> > As to how to track down what is going wrong on your system, I'm afraid I
> have no idea.  Someone on the list may have some thoughts.
>
> > cheers,
>
> > Rolf Turner
>
> > --
> > Rolf Turner
> > Technical Editor ANZJS
>
> > ______________________________________________
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> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
>
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> > and provide commented, minimal, self-contained, reproducible code.
>

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